Thermodynamic database supports deciphering protein-nucleic acid interactions

被引：6

作者：

Mei, Long -Can ^{[1
]}

Hao, Ge-Fei ^{[1
,2
]}

Yang, Guang-Fu ^{[1
]}

机构：

[1] Cent China Normal Univ, Coll Chem, Key Lab Pesticide & Chem Biol, Minist Educ, Wuhan 430079, Peoples R China

[2] Guizhou Univ, Res & Dev Ctr Fine Chem, State Key Lab Breeding Base Green Pesticide & Agr, Key Lab Green Pesticide & Agr Bioengn,Minist Educ, Guiyang 550000, Peoples R China

来源：

TRENDS IN BIOTECHNOLOGY | 2023年 / 41卷 / 02期

基金：

中国国家自然科学基金;

关键词：

D O I：

10.1016/j.tibtech.2022.09.018

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

The thermodynamics of protein- nucleic acid interactions (PNIs) is crucial for elucidating the mecha-nisms of molecular recognition and pathological consequences. The Protein-Nucleic Acid Thermo-dynamics Database (PNATDB) is a database containing experimen-tally determined thermodynamic parameters along with sequence, structural, and function data, which is available free online.

引用

页码：140 / 143

页数：4

共 14 条

[1] Oligonucleotide Analogs and Mimics for Sensing Macromolecular Biocompounds [J].

Bartold, Katarzyna ;

Pietrzyk-Le, Agnieszka ;

D'Souza, Francis ;

Kutner, Wlodzimierz .

TRENDS IN BIOTECHNOLOGY, 2019, 37 (10) :1051-1062

[2] Direct observation of structure-function relationship in a nucleic acid-processing enzyme [J].

Comstock, Matthew J. ;

Whitley, Kevin D. ;

Jia, Haifeng ;

Sokoloski, Joshua ;

Lohman, Timothy M. ;

Ha, Taekjip ;

Chemla, Yann R. .

SCIENCE, 2015, 348 (6232) :352-354

[3] Protein-DNA/RNA Interactions: An Overview of Investigation Methods in the -Omics Era [J].

Cozzolino, Flora ;

Iacobucci, Ilaria ;

Monaco, Vittoria ;

Monti, Maria .

JOURNAL OF PROTEOME RESEARCH, 2021, 20 (06) :3018-3030

[4] ProNAB: database for binding affinities of protein-nucleic acid complexes and their mutants [J].

Harini, Kannan ;

Srivastava, Ambuj ;

Kulandaisamy, Arulsamy ;

Gromiha, M. Michael .

NUCLEIC ACIDS RESEARCH, 2022, 50 (D1) :D1528-D1534

[5] Specificity and nonspecificity in RNA-protein interactions [J].

Jankowsky, Eckhard ;

Harris, Michael E. .

NATURE REVIEWS MOLECULAR CELL BIOLOGY, 2015, 16 (09) :533-544

[6] ProTherm and ProNIT: thermodynamic databases for proteins and protein-nucleic acid interactions [J].

Kumar, M. D. Shaji ;

Bava, K. Abdulla ;

Gromiha, M. Michael ;

Prabakaran, Ponraj ;

Kitajima, Koji ;

Uedaira, Hatsuho ;

Sarai, Akinori .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D204-D206

[7] A deep learning framework to predict binding preference of RNA constituents on protein surface [J].

Lam, Jordy Homing ;

Li, Yu ;

Zhu, Lizhe ;

Umarov, Ramzan ;

Jiang, Hanlun ;

Heliou, Amelie ;

Sheong, Fu Kit ;

Liu, Tianyun ;

Long, Yongkang ;

Li, Yunfei ;

Fang, Liang ;

Altman, Russ B. ;

Chen, Wei ;

Huang, Xuhui ;

Gao, Xin .

NATURE COMMUNICATIONS, 2019, 10 (1)

[8] dbAMEPNI: a database of alanine mutagenic effects for protein-nucleic acid interactions [J].

Liu, Ling ;

Xiong, Yi ;

Gao, Hongyun ;

Wei, Dong-Qing ;

Mitchell, Julie C. ;

Zhu, Xiaolei .

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION, 2018,

[9] PDB-wide collection of binding data: current status of the PDBbind database [J].

Liu, Zhihai ;

Li, Yan ;

Han, Li ;

Li, Jie ;

Liu, Jie ;

Zhao, Zhixiong ;

Nie, Wei ;

Liu, Yuchen ;

Wang, Renxiao .

BIOINFORMATICS, 2015, 31 (03) :405-412

[10] Improving aptamer performance with nucleic acid mimics: de novo and post-SELEX approaches [J].

Oliveira, Ricardo ;

Pinho, Eva ;

Sousa, Ana Luisa ;

DeStefano, Jeffrey J. ;

Azevedo, Nuno Filipe ;

Almeida, Carina .

TRENDS IN BIOTECHNOLOGY, 2022, 40 (05) :549-563

← 1 2 →